miRNA display CGI


Results 1 - 20 of 22 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
12016 3' -56 NC_003278.1 + 32730 0.66 0.591495
Target:  5'- uUGC-CGAaacucUGGccgcGGGGAUCGGCGAcggaguacgugccuuGGCCg -3'
miRNA:   3'- -ACGcGCU-----ACC----UCUCUAGCUGCU---------------CCGG- -5'
12016 3' -56 NC_003278.1 + 6906 0.66 0.587032
Target:  5'- cGCGCGcuuGAGcAGAUCGAUGccGGCUu -3'
miRNA:   3'- aCGCGCuacCUC-UCUAGCUGCu-CCGG- -5'
12016 3' -56 NC_003278.1 + 13299 0.66 0.587032
Target:  5'- gGCGuCGuugaGGuAGGcGUCGACGAuGGCCa -3'
miRNA:   3'- aCGC-GCua--CC-UCUcUAGCUGCU-CCGG- -5'
12016 3' -56 NC_003278.1 + 18780 0.66 0.587032
Target:  5'- gGCGuCGGUauccaagggGGAGAGAaaccgcCGGCcGGGCCg -3'
miRNA:   3'- aCGC-GCUA---------CCUCUCUa-----GCUGcUCCGG- -5'
12016 3' -56 NC_003278.1 + 21636 0.66 0.587032
Target:  5'- gGCGUGAUcgcaGGGcGGGAgccUCGGgaaacuccccguCGAGGCCg -3'
miRNA:   3'- aCGCGCUA----CCU-CUCU---AGCU------------GCUCCGG- -5'
12016 3' -56 NC_003278.1 + 27249 0.66 0.585916
Target:  5'- gGUGCcAUGGGGAGcaccagcAUUGGCcgcucGAGGCCc -3'
miRNA:   3'- aCGCGcUACCUCUC-------UAGCUG-----CUCCGG- -5'
12016 3' -56 NC_003278.1 + 27504 0.66 0.575902
Target:  5'- aGC-CGAucUGGcuGGGcAUCGACuGGGGCCa -3'
miRNA:   3'- aCGcGCU--ACCu-CUC-UAGCUG-CUCCGG- -5'
12016 3' -56 NC_003278.1 + 32596 0.66 0.574791
Target:  5'- cGCGCGcgGGccgcgacAGAGAaugcgccguUCGugG-GGCUg -3'
miRNA:   3'- aCGCGCuaCC-------UCUCU---------AGCugCuCCGG- -5'
12016 3' -56 NC_003278.1 + 25684 0.66 0.56482
Target:  5'- aGCaCGAUGGGG---UCGAUGGGGUUa -3'
miRNA:   3'- aCGcGCUACCUCucuAGCUGCUCCGG- -5'
12016 3' -56 NC_003278.1 + 6889 0.66 0.553795
Target:  5'- aGUGCGgcGGGaAGAagGAUuugGAGGCCg -3'
miRNA:   3'- aCGCGCuaCCUcUCUagCUG---CUCCGG- -5'
12016 3' -56 NC_003278.1 + 7888 0.66 0.553795
Target:  5'- gGgGagGGUGGGGccguGGUCGGCcAGGCCg -3'
miRNA:   3'- aCgCg-CUACCUCu---CUAGCUGcUCCGG- -5'
12016 3' -56 NC_003278.1 + 19363 0.66 0.542835
Target:  5'- aGCGCGGcgcccUGGAGcAGGUCagcaccGCGcuGGCCg -3'
miRNA:   3'- aCGCGCU-----ACCUC-UCUAGc-----UGCu-CCGG- -5'
12016 3' -56 NC_003278.1 + 8011 0.66 0.542835
Target:  5'- gGCgGUGGUGGuGAGGUCagccauGCGGGGUg -3'
miRNA:   3'- aCG-CGCUACCuCUCUAGc-----UGCUCCGg -5'
12016 3' -56 NC_003278.1 + 9374 0.67 0.49979
Target:  5'- cGCGCGAgcuUGGugucguAGAGGUUccgcuuguaGuCGGGGCCg -3'
miRNA:   3'- aCGCGCU---ACC------UCUCUAG---------CuGCUCCGG- -5'
12016 3' -56 NC_003278.1 + 26853 0.67 0.49979
Target:  5'- gGCGCGGU---GAGGUCGAccgcaucaucgcCGAGGCg -3'
miRNA:   3'- aCGCGCUAccuCUCUAGCU------------GCUCCGg -5'
12016 3' -56 NC_003278.1 + 33237 0.67 0.489261
Target:  5'- gGCGUGAUGGGcaccacccuGuuGUUGGCuGAGGCUg -3'
miRNA:   3'- aCGCGCUACCU---------CucUAGCUG-CUCCGG- -5'
12016 3' -56 NC_003278.1 + 31173 0.67 0.489261
Target:  5'- gGUGCGAggacugcGGAGAGca-GAuaccCGAGGCCc -3'
miRNA:   3'- aCGCGCUa------CCUCUCuagCU----GCUCCGG- -5'
12016 3' -56 NC_003278.1 + 2540 0.71 0.298035
Target:  5'- aGCGCccaGGccAGAUCGGCGuGGCCg -3'
miRNA:   3'- aCGCGcuaCCucUCUAGCUGCuCCGG- -5'
12016 3' -56 NC_003278.1 + 29397 0.72 0.242085
Target:  5'- gUGCGCGgcGGcGuGAUCGAgaAGGCCa -3'
miRNA:   3'- -ACGCGCuaCCuCuCUAGCUgcUCCGG- -5'
12016 3' -56 NC_003278.1 + 6620 0.74 0.181716
Target:  5'- cGCGCGuaccgccGGcugcgucaucgccgaAGAGAUCGcCGAGGCCg -3'
miRNA:   3'- aCGCGCua-----CC---------------UCUCUAGCuGCUCCGG- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.